Literature DB >> 14681453

The aMAZE LightBench: a web interface to a relational database of cellular processes.

Christian Lemer1, Erick Antezana, Fabian Couche, Frédéric Fays, Xavier Santolaria, Rekin's Janky, Yves Deville, Jean Richelle, Shoshana J Wodak.   

Abstract

The aMAZE LightBench (http://www.amaze.ulb. ac.be/) is a web interface to the aMAZE relational database, which contains information on gene expression, catalysed chemical reactions, regulatory interactions, protein assembly, as well as metabolic and signal transduction pathways. It allows the user to browse the information in an intuitive way, which also reflects the underlying data model. Moreover links are provided to literature references, and whenever appropriate, to external databases.

Mesh：

Year:  2004        PMID： 14681453      PMCID： PMC308873          DOI： 10.1093/nar/gkh139

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  16 in total

1.  WIT: integrated system for high-throughput genome sequence analysis and metabolic reconstruction.

Authors:  R Overbeek; N Larsen; G D Pusch; M D'Souza; E Selkov; N Kyrpides; M Fonstein; N Maltsev; E Selkov
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  RegulonDB (version 3.2): transcriptional regulation and operon organization in Escherichia coli K-12.

Authors:  H Salgado; A Santos-Zavaleta; S Gama-Castro; D Millán-Zárate; E Díaz-Peredo; F Sánchez-Solano; E Pérez-Rueda; C Bonavides-Martínez; J Collado-Vides
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

Review 3.  Representing and analysing molecular and cellular function using the computer.

Authors:  J van Helden; A Naim; R Mancuso; M Eldridge; L Wernisch; D Gilbert; S J Wodak
Journal:  Biol Chem       Date:  2000 Sep-Oct       Impact factor: 3.915

Review 4.  BRENDA: a resource for enzyme data and metabolic information.

Authors:  Ida Schomburg; Antje Chang; Oliver Hofmann; Christian Ebeling; Frank Ehrentreich; Dietmar Schomburg
Journal:  Trends Biochem Sci       Date:  2002-01       Impact factor: 13.807

5.  From molecular activities and processes to biological function.

Authors:  J van Helden; A Naim; C Lemer; R Mancuso; M Eldridge; S J Wodak
Journal:  Brief Bioinform       Date:  2001-03       Impact factor: 11.622

6.  The KEGG databases at GenomeNet.

Authors:  Minoru Kanehisa; Susumu Goto; Shuichi Kawashima; Akihiro Nakaya
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

7.  The EcoCyc Database.

Authors:  Peter D Karp; Monica Riley; Milton Saier; Ian T Paulsen; Julio Collado-Vides; Suzanne M Paley; Alida Pellegrini-Toole; César Bonavides; Socorro Gama-Castro
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

8.  DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions.

Authors:  Ioannis Xenarios; Lukasz Salwínski; Xiaoqun Joyce Duan; Patrick Higney; Sul-Min Kim; David Eisenberg
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

Review 9.  MINT: a Molecular INTeraction database.

Authors:  Andreas Zanzoni; Luisa Montecchi-Palazzi; Michele Quondam; Gabriele Ausiello; Manuela Helmer-Citterich; Gianni Cesareni
Journal:  FEBS Lett       Date:  2002-02-20       Impact factor: 4.124

10.  TRANSFAC: transcriptional regulation, from patterns to profiles.

Authors:  V Matys; E Fricke; R Geffers; E Gössling; M Haubrock; R Hehl; K Hornischer; D Karas; A E Kel; O V Kel-Margoulis; D-U Kloos; S Land; B Lewicki-Potapov; H Michael; R Münch; I Reuter; S Rotert; H Saxel; M Scheer; S Thiele; E Wingender
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971
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  22 in total

1.  The strength of chemical linkage as a criterion for pruning metabolic graphs.

Authors:  Wanding Zhou; Luay Nakhleh
Journal:  Bioinformatics       Date:  2011-05-05       Impact factor: 6.937

2.  Evaluation of clustering algorithms for protein-protein interaction networks.

Authors:  Sylvain Brohée; Jacques van Helden
Journal:  BMC Bioinformatics       Date:  2006-11-06       Impact factor: 3.169

3.  Efficient reconstruction of metabolic pathways by bidirectional chemical search.

Authors:  Liliana Félix; Francesc Rosselló; Gabriel Valiente
Journal:  Bull Math Biol       Date:  2008-12-20       Impact factor: 1.758

4.  Study on Hepatotoxicity of Rhubarb Based on Metabolomics and Network Pharmacology.

Authors:  Shanze Li; Yuming Wang; Chunyan Li; Na Yang; Hongxin Yu; Wenjie Zhou; Siyu Chen; Shenshen Yang; Yubo Li
Journal:  Drug Des Devel Ther       Date:  2021-05-04       Impact factor: 4.162

Review 5.  Cataloging the relationships between proteins: a review of interaction databases.

Authors:  Carol Rohl; Yancey Price; Tiffany B Fischer; Melissa Paczkowski; Michael F Zettel; Jerry Tsai
Journal:  Mol Biotechnol       Date:  2006-09       Impact factor: 2.860

6.  PathLocdb: a comprehensive database for the subcellular localization of metabolic pathways and its application to multiple localization analysis.

Authors:  Min Zhao; Hong Qu
Journal:  BMC Genomics       Date:  2010-12-02       Impact factor: 3.969

7.  Automation of gene assignments to metabolic pathways using high-throughput expression data.

Authors:  Liviu Popescu; Golan Yona
Journal:  BMC Bioinformatics       Date:  2005-08-31       Impact factor: 3.169

8.  Metabolic PathFinding: inferring relevant pathways in biochemical networks.

Authors:  Didier Croes; Fabian Couche; Shoshana J Wodak; Jacques van Helden
Journal:  Nucleic Acids Res       Date:  2005-07-01       Impact factor: 16.971

9.  TRANSPATH: an information resource for storing and visualizing signaling pathways and their pathological aberrations.

Authors:  Mathias Krull; Susanne Pistor; Nico Voss; Alexander Kel; Ingmar Reuter; Deborah Kronenberg; Holger Michael; Knut Schwarzer; Anatolij Potapov; Claudia Choi; Olga Kel-Margoulis; Edgar Wingender
Journal:  Nucleic Acids Res       Date:  2006-01-01       Impact factor: 16.971

10.  Systems biology, bioinformatics, and biomarkers in neuropsychiatry.

Authors:  Ali Alawieh; Fadi A Zaraket; Jian-Liang Li; Stefania Mondello; Amaly Nokkari; Mahdi Razafsha; Bilal Fadlallah; Rose-Mary Boustany; Firas H Kobeissy
Journal:  Front Neurosci       Date:  2012-12-24       Impact factor: 4.677
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